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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ), 'gf_id' => 'HOM05D001000', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001000' ), 'data_identifier' => 'HOM05D001000', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001000', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '605', 'num_species' => '92' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p22670' => 'bna', 'A04p27610' => 'bna', 'A05p09780' => 'bna', 'A05p13400' => 'bna', 'A09p45630' => 'bna', 'A09p67450' => 'bna', 'A10p04100' => 'bna', 'A10p31390' => 'bna', 'Aa31LG10G7580' => 'aar', 'Aa31LG11G5640' => 'aar', 'Aa31LG1G19220' => 'aar', 'Aa31LG5G21200' => 'aar', 'Aa31LG5G4910' => 'aar', 'Aa31LG9G2440' => 'aar', 'Actinidia00775' => 'ach', 'Actinidia03843' => 'ach', 'Actinidia06174' => 'ach', 'Actinidia06689' => 'ach', 'Actinidia07936' => 'ach', 'Actinidia09121' => 'ach', 'Actinidia32060' => 'ach', 'Ah.04g154610' => 'amhyb', 'Ah.04g162500' => 'amhyb', 'Ah.08g210200' => 'amhyb', 'Ah.11g050530' => 'amhyb', 'Ah.15g090540' => 'amhyb', 'AL1G15250' => 'aly', 'AL4G27480' => 'aly', 'AL4G32140' => 'aly', 'AL5G33300' => 'aly', 'AL6G14480' => 'aly', 'AL6G14660' => 'aly', 'AL7G40990' => 'aly', 'Aqoxy2G03395' => 'aox', 'Aqoxy4G02690' => 'aox', 'Aqoxy5G00464' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0X7MFH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.1M8NR5' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.GAX9IU' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.HFU6F2' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.N32B4U' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NU1YL6' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.P3DMLF' => 'arhy', 'AT1G05420' => 'ath', 'AT2G32100' => 'ath', 'AT2G36050' => 'ath', 'AT3G52540' => 'ath', 'AT4G14860' => 'ath', 'AT5G04820' => 'ath', 'ATR0620G117' => 'atr', 'ATR0697G192' => 'atr', 'ATR0772G061' => 'atr', 'ATR1120G028' => 'atr', 'Atru.chr12.1059' => 'acertr', 'Atru.chr3.3149' => 'acertr', 'Atru.chr3.3150' => 'acertr', 'Atru.chr4.2457' => 'acertr', 'Atru.chr5.1466' => 'acertr', 'Atru.chr8.1399' => 'acertr', 'AUR62003415' => 'cqu', 'AUR62028607' => 'cqu', 'AUR62034179' => 'cqu', 'AUR62034180' => 'cqu', 'AUR62037034' => 'cqu', 'AUR62041559' => 'cqu', 'BcaB01g00359' => 'bca', 'BcaB02g06863' => 'bca', 'BcaB02g07831' => 'bca', 'BcaB02g09388' => 'bca', 'BcaB02g10451' => 'bca', 'BcaB05g21743' => 'bca', 'BcaB06g28911' => 'bca', 'BcaC02g07635' => 'bca', 'BcaC02g11705' => 'bca', 'BcaC03g13136' => 'bca', 'BcaC05g24392' => 'bca', 'BcaC06g32189' => 'bca', 'BcaC07g38418' => 'bca', 'BcaC07g39622' => 'bca', 'BcaC07g42132' => 'bca', 'BcaC09g50165' => 'bca', 'BcaNung00325' => 'bca', 'BolC1t02756H' => 'bol', 'BolC2t06176H' => 'bol', 'BolC4t22858H' => 'bol', 'BolC4t23299H' => 'bol', 'BolC4t27989H' => 'bol', 'BolC5t29152H' => 'bol', 'BolC8t50398H' => 'bol', 'BolC8t52701H' => 'bol', 'BolC9t59951H' => 'bol', 'BraA01t02181Z' => 'bra', 'BraA04t18256Z' => 'bra', 'BraA05t19930Z' => 'bra', 'BraA05t20278Z' => 'bra', 'BraA09t40024Z' => 'bra', 'BraA09t42073Z' => 'bra', 'BraA10t42681Z' => 'bra', 'BraA10t45185Z' => 'bra', 'C01p28270' => 'bna', 'C02p02090' => 'bna', 'C04p12140' => 'bna', 'C04p17520' => 'bna', 'C04p65110' => 'bna', 'C05p03750' => 'bna', 'C08p27830' => 'bna', 'C08p51730' => 'bna', 'C09p72060' => 'bna', 'CAN.G143.14' => 'can', 'CAN.G1433.19' => 'can', 'CAN.G1463.4' => 'can', 'CAN.G3.10' => 'can', 'CAN.G490.16' => 'can', 'CAN.G574.38' => 'can', 'CANSAT25G3680' => 'cansat', 'CANSAT54G0987' => 'cansat', 'CANSAT56G4195' => 'cansat', 'CANSAT64G2242' => 'cansat', 'CANSAT78G2346' => 'cansat', 'CARHR004910' => 'chi', 'CARHR125900' => 'chi', 'CARHR162320' => 'chi', 'CARHR208460' => 'chi', 'CARHR221430' => 'chi', 'CARHR221440' => 'chi', 'Carub.0001s0474' => 'cru', 'Carub.0004s1345' => 'cru', 'Carub.0004s1779' => 'cru', 'Carub.0005s1895' => 'cru', 'Carub.0006s0370' => 'cru', 'Carub.0007s2725' => 'cru', 'Ca_08612_v3' => 'car', 'Ca_09039_v3' => 'car', 'Ca_10891_v3' => 'car', 'Ca_25649_v3' => 'car', 'Ca_30334_v3' => 'car', 'Cc01_g19340' => 'ccan', 'Cc02_g09500' => 'ccan', 'Cc03_g03850' => 'ccan', 'Cc06_g06330' => 'ccan', 'CDE01G0226' => 'cde', 'CDE02G3168' => 'cde', 'CDE02G3480' => 'cde', 'CDE04G1175' => 'cde', 'CDE06G0635' => 'cde', 'CDE07G0388' => 'cde', 'CDE11G1090' => 'cde', 'Cfa006161' => 'cfa', 'Cfa009972' => 'cfa', 'Cfa010537' => 'cfa', 'Cfa015654' => 'cfa', 'Cfa016666' => 'cfa', 'Ciclev10006578m.g' => 'ccl', 'Ciclev10012467m.g' => 'ccl', 'Ciclev10016377m.g' => 'ccl', 'Ciclev10024021m.g' => 'ccl', 'Ciclev10030253m.g' => 'ccl', 'CiPaw.01G166800' => 'cil', 'CiPaw.02G097500' => 'cil', 'CiPaw.07G090000' => 'cil', 'CiPaw.08G107000' => 'cil', 'CiPaw.09G018500' => 'cil', 'CiPaw.10G015100' => 'cil', 'CiPaw.13G042900' => 'cil', 'CiPaw.13G132000' => 'cil', 'CiPaw.14G034400' => 'cil', 'ClCG04G010330' => 'cla', 'ClCG05G021880' => 'cla', 'ClCG06G006250' => 'cla', 'ClCG08G008400' => 'cla', 'ClCG09G007180' => 'cla', 'ClCG10G018540' => 'cla', 'COL.COLO4_09070' => 'col', 'COL.COLO4_21485' => 'col', 'COL.COLO4_22648' => 'col', 'COL.COLO4_29618' => 'col', 'COL.COLO4_37435' => 'col', 'Cpa.g.sc104.65' => 'cpa', 'Cpa.g.sc487.2' => 'cpa', 'Cpa.g.sc54.14' => 'cpa', 'Cpa.g.sc58.100' => 'cpa', 'CsaV3_3G013290' => 'csa', 'CsaV3_3G037710' => 'csa', 'CsaV3_5G035260' => 'csa', 'CsaV3_6G004380' => 'csa', 'CsaV3_6G040950' => 'csa', 'CsaV3_7G022480' => 'csa', 'CsaV3_7G027990' => 'csa', 'CSS0003463' => 'camsi', 'CSS0013646' => 'camsi', 'CSS0021379' => 'camsi', 'CSS0028055' => 'camsi', 'CSS0030687' => 'camsi', 'CSS0030767' => 'camsi', 'CSS0043313' => 'camsi', 'CSS0047001' => 'camsi', 'DCAR_002384' => 'dca', 'DCAR_002726' => 'dca', 'DCAR_006331' => 'dca', 'DCAR_012488' => 'dca', 'DCAR_013428' => 'dca', 'DCAR_016924' => 'dca', 'DCAR_018427' => 'dca', 'DCAR_020722' => 'dca', 'DCAR_030639' => 'dca', 'Dinv08409' => 'din', 'Dinv08594' => 'din', 'Dinv12320' => 'din', 'Dinv13997' => 'din', 'Dinv17081' => 'din', 'Dinv21701' => 'din', 'Dinv22794' => 'din', 'Dinv31742' => 'din', 'Dinv32256' => 'din', 'Dinv32917' => 'din', 'Dinv34771' => 'din', 'Dinv44538' => 'din', 'Duzib052G0755' => 'dzi', 'Duzib093G1555' => 'dzi', 'Duzib106G1160' => 'dzi', 'Duzib114G0026' => 'dzi', 'Duzib128G0514' => 'dzi', 'Duzib128G1274' => 'dzi', 'Duzib133G0897' => 'dzi', 'Duzib138G0331' => 'dzi', 'Duzib150G1445' => 'dzi', 'Duzib170G0167' => 'dzi', 'ECA232G1950' => 'eca', 'ECA238G2616' => 'eca', 'ECA238G4651' => 'eca', 'ECA248G0297' => 'eca', 'EL10Ac4g08704' => 'bvu', 'EL10Ac5g10552' => 'bvu', 'EL10Ac7g16817' => 'bvu', 'Eucgr.A02609' => 'egr', 'Eucgr.H03462' => 'egr', 'Eucgr.J00277' => 'egr', 'FAN02G4019' => 'fan', 'FAN05G4507' => 'fan', 'FAN05G4882' => 'fan', 'FAN07G0223' => 'fan', 'FAN09G4292' => 'fan', 'FAN12G3617' => 'fan', 'FAN14G5247' => 'fan', 'FAN15G0371' => 'fan', 'FAN17G3116' => 'fan', 'FAN19G2399' => 'fan', 'FAN20G2219' => 'fan', 'FAN22G0256' => 'fan', 'FAN24G1656' => 'fan', 'FAN27G2499' => 'fan', 'FvH4_1g09620' => 'fve', 'FvH4_2g23310' => 'fve', 'FvH4_4g15660' => 'fve', 'FvH4_6g19870' => 'fve', 'Glyma.01G200600' => 'gma', 'Glyma.02G146400' => 'gma', 'Glyma.02G199500' => 'gma', 'Glyma.03G155600' => 'gma', 'Glyma.03G200100' => 'gma', 'Glyma.10G027500' => 'gma', 'Glyma.10G077700' => 'gma', 'Glyma.10G247600' => 'gma', 'Glyma.10G277300' => 'gma', 'Glyma.19G157700' => 'gma', 'Glyma.19G197700' => 'gma', 'Glyma.20G112400' => 'gma', 'Glyma.20G147700' => 'gma', 'Gohir.A01G202700' => 'ghi', 'Gohir.A04G061500' => 'ghi', 'Gohir.A06G169700' => 'ghi', 'Gohir.A07G112000' => 'ghi', 'Gohir.A08G065600' => 'ghi', 'Gohir.A09G056300' => 'ghi', 'Gohir.A09G216300' => 'ghi', 'Gohir.A10G051901' => 'ghi', 'Gohir.A11G123700' => 'ghi', 'Gohir.D01G192700' => 'ghi', 'Gohir.D04G095500' => 'ghi', 'Gohir.D06G177300' => 'ghi', 'Gohir.D07G115500' => 'ghi', 'Gohir.D08G074400' => 'ghi', 'Gohir.D09G055700' => 'ghi', 'Gohir.D09G218700' => 'ghi', 'Gohir.D11G128900' => 'ghi', 'Gohir.D11G336800' => 'ghi', 'Gorai.001G123700' => 'gra', 'Gorai.002G236500' => 'gra', 'Gorai.004G078700' => 'gra', 'Gorai.006G068700' => 'gra', 'Gorai.006G239700' => 'gra', 'Gorai.007G137900' => 'gra', 'Gorai.007G366800' => 'gra', 'Gorai.009G398200' => 'gra', 'Gorai.N007900' => 'gra', 'GSVIVG01017984001' => 'vvi', 'GSVIVG01034649001' => 'vvi', 'HanXRQChr01g0002931' => 'han', 'HanXRQChr02g0053511' => 'han', 'HanXRQChr05g0145021' => 'han', 'HanXRQChr11g0341931' => 'han', 'HanXRQChr14g0438091' => 'han', 'Haze_00891' => 'cav', 'Haze_03473' => 'cav', 'Haze_04688' => 'cav', 'Haze_19677' => 'cav', 'Haze_23333' => 'cav', 'Hma1.2p1_0064F.1_g034870' => 'hma', 'Hma1.2p1_0457F.1_g156930' => 'hma', 'Hma1.2p1_0667F.1_g199700' => 'hma', 'Hma1.2p1_0745F.1_g212070' => 'hma', 'Hma1.2p1_0822F.1_g224360' => 'hma', 'HPP92_001987' => 'vpl', 'HPP92_009776' => 'vpl', 'HPP92_023505' => 'vpl', 'Lalb_Chr02g0142671' => 'lal', 'Lalb_Chr02g0154641' => 'lal', 'Lalb_Chr06g0162911' => 'lal', 'Lalb_Chr06g0166271' => 'lal', 'Lalb_Chr20g0111501' => 'lal', 'Lalb_Chr21g0309071' => 'lal', 'Lalb_Chr25g0288111' => 'lal', 'Lj1g0005440' => 'lja', 'Lj1g0011176' => 'lja', 'Lj1P1044T15' => 'lonja', 'Lj2C34T8' => 'lonja', 'Lj5g0016912' => 'lja', 'Lj5g0019930' => 'lja', 'Lj5g0023342' => 'lja', 'Lj6P608T30' => 'lonja', 'Lsat_1_v5_gn_2_105761' => 'lsa', 'Lsat_1_v5_gn_2_105781' => 'lsa', 'Lsat_1_v5_gn_5_184400' => 'lsa', 'Lsat_1_v5_gn_9_47200' => 'lsa', 'Manes.01G206500' => 'mes', 'Manes.03G178100' => 'mes', 'Manes.05G078000' => 'mes', 'Manes.07G085600' => 'mes', 'Manes.08G031100' => 'mes', 'Manes.09G048800' => 'mes', 'MBI01_g25204_MAGBIO' => 'mbi', 'MBI04_g12482_MAGBIO' => 'mbi', 'MBI11_g04159_MAGBIO' => 'mbi', 'MBI11_g31277_MAGBIO' => 'mbi', 'MBI11_g37136_MAGBIO' => 'mbi', 'MD00G1157000' => 'mdo', 'MD02G1258900' => 'mdo', 'MD03G1262500' => 'mdo', 'MD07G1061800' => 'mdo', 'MD07G1061900' => 'mdo', 'MD11G1283200' => 'mdo', 'MD12G1034200' => 'mdo', 'MD13G1193900' => 'mdo', 'MD14G1035600' => 'mdo', 'Medtr1g058000' => 'mtr', 'Medtr1g072110' => 'mtr', 'Medtr1g103640' => 'mtr', 'Medtr1g111640' => 'mtr', 'Medtr7g095150' => 'mtr', 'Medtr7g105780' => 'mtr', 'MELO3C006531.2' => 'cme', 'MELO3C009514.2' => 'cme', 'MELO3C012340.2' => 'cme', 'MELO3C015818.2' => 'cme', 'MELO3C019910.2' => 'cme', 'MELO3C024573.2' => 'cme', 'Migut.D00315' => 'egut', 'Migut.F00859' => 'egut', 'Migut.F01586' => 'egut', 'Migut.G00342' => 'egut', 'Migut.J00681' => 'egut', 'Migut.L01817' => 'egut', 'MSTRG.10391' => 'ama', 'MSTRG.18244' => 'ama', 'MSTRG.26612' => 'ama', 'MSTRG.27557' => 'ama', 'MSTRG.4034' => 'ama', 'MSTRG.5883' => 'ama', 'MSTRG.9045' => 'ama', 'Nitab4.5_0000020g0390' => 'nta', 'Nitab4.5_0000380g0170' => 'nta', 'Nitab4.5_0001047g0050' => 'nta', 'Nitab4.5_0002706g0010' => 'nta', 'Nitab4.5_0002876g0020' => 'nta', 'Nitab4.5_0003787g0020' => 'nta', 'Nitab4.5_0004277g0030' => 'nta', 'Nitab4.5_0004318g0090' => 'nta', 'Nitab4.5_0005214g0020' => 'nta', 'Nitab4.5_0007361g0040' => 'nta', 'Nitab4.5_0012938g0020' => 'nta', 'Nitab4.5_0013107g0010' => 'nta', 'Nn1g02331' => 'nnu', 'Nn4g26331' => 'nnu', 'Nn6g34762' => 'nnu', 'Oeu009310.1' => 'oeu', 'Oeu017709.1' => 'oeu', 'Oeu020076.1' => 'oeu', 'Oeu028656.1' => 'oeu', 'Oeu033284.1' => 'oeu', 'Oeu034960.1' => 'oeu', 'Oeu034986.1' => 'oeu', 'Oeu055897.1' => 'oeu', 'Os01g0863800' => 'osa', 'Os03g0159400' => 'osa', 'Os04g0415100' => 'osa', 'Os04g0685000' => 'osa', 'Os05g0441400' => 'osa', 'Os08g0102400' => 'osa', 'Os10g0431700' => 'osa', 'Os11g0156300' => 'osa', 'Os12g0158300' => 'osa', 'Peaxi162Scf00092g00082' => 'pax', 'Peaxi162Scf00125g00042' => 'pax', 'Peaxi162Scf00419g00035' => 'pax', 'Peaxi162Scf00519g00047' => 'pax', 'Peaxi162Scf00755g00015' => 'pax', 'Peaxi162Scf01248g00013' => 'pax', 'Peaxi162Scf01662g00005' => 'pax', 'PGR004G0529' => 'pgr', 'PGR004G2682' => 'pgr', 'PGR044G1080' => 'pgr', 'PGR044G1478' => 'pgr', 'PGR142G3677' => 'pgr', 'PGSC0003DMG400005900' => 'stu', 'PGSC0003DMG400007601' => 'stu', 'PGSC0003DMG400016385' => 'stu', 'PGSC0003DMG400019329' => 'stu', 'PGSC0003DMG400023395' => 'stu', 'PGSC0003DMG400032276' => 'stu', 'Phvul.001G153000' => 'pvu', 'Phvul.001G194000' => 'pvu', 'Phvul.007G024100' => 'pvu', 'Phvul.007G057800' => 'pvu', 'Phvul.007G173000' => 'pvu', 'Phvul.007G269900' => 'pvu', 'Potri.002G051200' => 'ptr', 'Potri.005G211300' => 'ptr', 'Potri.006G205500' => 'ptr', 'Potri.008G017500' => 'ptr', 'Potri.008G153500' => 'ptr', 'Potri.009G161600' => 'ptr', 'Potri.010G087200' => 'ptr', 'Potri.010G241500' => 'ptr', 'Potri.016G072900' => 'ptr', 'Prupe.1G014600' => 'ppe', 'Prupe.2G071500' => 'ppe', 'Prupe.7G098500' => 'ppe', 'Prupe.8G238800' => 'ppe', 'Psat0s586g0080' => 'psa', 'Psat3g030320' => 'psa', 'Psat6g083520' => 'psa', 'Psat6g230280' => 'psa', 'PSO210G0033' => 'pso', 'PSO210G3543' => 'pso', 'PSO339G2273' => 'pso', 'PSO384G5089' => 'pso', 'PSO761G0639' => 'pso', 'PSO832G4130' => 'pso', 'QL01p011382' => 'qlo', 'QL01p011639' => 'qlo', 'QL04p047041' => 'qlo', 'QL06p002196' => 'qlo', 'QL07p037531' => 'qlo', 'QL12p021288' => 'qlo', 'QL93p2014_0028' => 'qlo', 'RcHm_v2.0_Chr3g0475291' => 'rch', 'RcHm_v2.0_Chr4g0416131' => 'rch', 'RcHm_v2.0_Chr6g0290721' => 'rch', 'Rhsim02G0025500' => 'rsi', 'Rhsim03G0067300' => 'rsi', 'Rhsim03G0096600' => 'rsi', 'Rhsim13G0026400' => 'rsi', 'RhsimUnG0214400' => 'rsi', 'Sabra02G0041900' => 'sbr', 'Sabra05G0161400' => 'sbr', 'Sabra06G0158500' => 'sbr', 'Sabra08G0011000' => 'sbr', 'Sabra08G0117100' => 'sbr', 'Sabra09G0126300' => 'sbr', 'Sabra10G0055700' => 'sbr', 'Sabra10G0189000' => 'sbr', 'Sabra16G0075800' => 'sbr', 'SalBow1G1920' => 'sbo', 'SalBow2G0358' => 'sbo', 'SalBow3G4358' => 'sbo', 'SalBow4G0432' => 'sbo', 'SalBow4G1207' => 'sbo', 'SalBow4G1302' => 'sbo', 'SalBow5G2061' => 'sbo', 'SalBow5G2087' => 'sbo', 'SalBow6G3767' => 'sbo', 'SalBow7G2797' => 'sbo', 'SalBow7G4573' => 'sbo', 'Sc02g0000030' => 'sci', 'Sc02g0000520' => 'sci', 'Sc06g0002400' => 'sci', 'Sc17g0001400' => 'sci', 'Sc19g0004100' => 'sci', 'Sc20g0001120' => 'sci', 'Sc20g0006600' => 'sci', 'Sc25g0004350' => 'sci', 'Sed0000447' => 'sed', 'Sed0003149' => 'sed', 'Sed0004790' => 'sed', 'Sed0007967' => 'sed', 'Sed0009461' => 'sed', 'Sed0011130' => 'sed', 'Sed0011934' => 'sed', 'Sed0016750' => 'sed', 'Sed0016928' => 'sed', 'Sed0022966' => 'sed', 'Sed0023818' => 'sed', 'SEGI_28373' => 'sgi', 'SEGI_33262' => 'sgi', 'SEGI_33718' => 'sgi', 'SGA_v2.0_scaffold138G35326' => 'sas', 'SGA_v2.0_scaffold13G06669' => 'sas', 'SGA_v2.0_scaffold184G40006' => 'sas', 'SGA_v2.0_scaffold1G00493' => 'sas', 'SGA_v2.0_scaffold39G15227' => 'sas', 'SHI32523' => 'shi', 'SMO347G0570' => 'smo', 'Solyc01g007810.1' => 'sly', 'Solyc05g055220.1' => 'sly', 'Solyc06g074020.2' => 'sly', 'Solyc09g065350.1' => 'sly', 'Solyc09g082080.1' => 'sly', 'Solyc11g006670.1' => 'sly', 'Sopen01g003350' => 'spe', 'Sopen05g033660' => 'spe', 'Sopen06g030440' => 'spe', 'Sopen09g027110' => 'spe', 'Sopen09g030950' => 'spe', 'Sopen11g002600' => 'spe', 'Sp1g04280' => 'spa', 'Sp4g14510' => 'spa', 'Sp4g18300' => 'spa', 'Sp6g38010' => 'spa', 'TAR362G0362' => 'tar', 'TAR365G1168' => 'tar', 'TAR369G0145' => 'tar', 'TAR375G0078' => 'tar', 'TAR623G0951' => 'tar', 'TAR633G0008' => 'tar', 'TAR633G0366' => 'tar', 'TAR633G2027' => 'tar', 'TAR633G2146' => 'tar', 'TAR636G0381' => 'tar', 'TAR636G1824' => 'tar', 'THA.LOC104800961' => 'tha', 'THA.LOC104803030' => 'tha', 'THA.LOC104803475' => 'tha', 'THA.LOC104816106' => 'tha', 'THA.LOC104816470' => 'tha', 'THA.LOC104817625' => 'tha', 'THA.LOC104823090' => 'tha', 'THA.LOC104823637' => 'tha', 'THA.LOC104826164' => 'tha', 'THA.LOC104826961' => 'tha', 'Thecc.01G276400' => 'tca', 'Thecc.04G232700' => 'tca', 'Thecc.05G100500' => 'tca', 'Thecc.09G276400' => 'tca', 'Thecc.10G115800' => 'tca', 'Thhalv10009912m.g' => 'esa', 'Thhalv10011014m.g' => 'esa', 'Thhalv10014455m.g' => 'esa', 'Thhalv10017064m.g' => 'esa', 'Thhalv10017153m.g' => 'esa', 'Thhalv10027111m.g' => 'esa', 'TPR.G20718' => 'tpr', 'TPR.G26283' => 'tpr', 'TPR.G35677' => 'tpr', 'TPR.G5495' => 'tpr', 'TPR.G8740' => 'tpr', 'TWI09G0882' => 'twi', 'TWI12G0467' => 'twi', 'TWI18G0499' => 'twi', 'TWI53G1968' => 'twi', 'TWI63G0964' => 'twi', 'TWI74G0536' => 'twi', 'unitig_22.g5137' => 'ugi', 'unitig_578.g15817' => 'ugi', 'unitig_746.g26780' => 'ugi', 'unitig_748.g8770' => 'ugi', 'unitig_749.g14308' => 'ugi', 'unitig_8.g3556' => 'ugi', 'vmacro02589' => 'vma', 'VMungo0720G1203' => 'vmu', 'VMungo0720G2056' => 'vmu', 'VMungo0720G2136' => 'vmu', 'VMungo0720G2559' => 'vmu', 'VMungo1383G1665' => 'vmu', 'VMungo1383G2300' => 'vmu', 'Zm00001eb004460' => 'zma', 'Zm00001eb047590' => 'zma', 'Zm00001eb083640' => 'zma', 'Zm00001eb092300' => 'zma', 'Zm00001eb146960' => 'zma', 'Zm00001eb197480' => 'zma', 'Zm00001eb259910' => 'zma', 'Zm00001eb288870' => 'zma', 'Zm00001eb337190' => 'zma', 'Zm00001eb434130' => 'zma', 'Zm00001eb434150' => 'zma' ) $gf_id = 'HOM05D001000' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001000' ) $data_identifier = 'HOM05D001000' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 17, 'aar' => (int) 6, 'ach' => (int) 7, 'amhyb' => (int) 5, 'aly' => (int) 7, 'aox' => (int) 3, 'arhy' => (int) 7, 'ath' => (int) 6, 'atr' => (int) 4, 'acertr' => (int) 6, 'cqu' => (int) 6, 'bca' => (int) 17, 'bol' => (int) 9, 'bra' => (int) 8, 'can' => (int) 6, 'cansat' => (int) 5, 'chi' => (int) 6, 'cru' => (int) 6, 'car' => (int) 5, 'ccan' => (int) 4, 'cde' => (int) 7, 'cfa' => (int) 5, 'ccl' => (int) 5, 'cil' => (int) 9, 'cla' => (int) 6, 'col' => (int) 5, 'cpa' => (int) 4, 'csa' => (int) 7, 'camsi' => (int) 8, 'dca' => (int) 9, 'din' => (int) 12, 'dzi' => (int) 10, 'eca' => (int) 4, 'bvu' => (int) 3, 'egr' => (int) 3, 'fan' => (int) 14, 'fve' => (int) 4, 'gma' => (int) 13, 'ghi' => (int) 18, 'gra' => (int) 9, 'vvi' => (int) 2, 'han' => (int) 5, 'cav' => (int) 5, 'hma' => (int) 5, 'vpl' => (int) 3, 'lal' => (int) 7, 'lja' => (int) 5, 'lonja' => (int) 3, 'lsa' => (int) 4, 'mes' => (int) 6, 'mbi' => (int) 5, 'mdo' => (int) 9, 'mtr' => (int) 6, 'cme' => (int) 6, 'egut' => (int) 6, 'ama' => (int) 7, 'nta' => (int) 12, 'nnu' => (int) 3, 'oeu' => (int) 8, 'osa' => (int) 9, 'pax' => (int) 7, 'pgr' => (int) 5, 'stu' => (int) 6, 'pvu' => (int) 6, 'ptr' => (int) 9, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 6, 'qlo' => (int) 7, 'rch' => (int) 3, 'rsi' => (int) 5, 'sbr' => (int) 9, 'sbo' => (int) 11, 'sci' => (int) 8, 'sed' => (int) 11, 'sgi' => (int) 3, 'sas' => (int) 5, 'shi' => (int) 1, 'smo' => (int) 1, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 4, 'tar' => (int) 11, 'tha' => (int) 10, 'tca' => (int) 5, 'esa' => (int) 6, 'tpr' => (int) 5, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 1, 'vmu' => (int) 6, 'zma' => (int) 11 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb434150' $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